2024-05-06 11:07:30, GGRNA.v2 : RefSeq release 222 (Jan, 2024)
LOCUS NM_001396448 4934 bp mRNA linear VRT 23-SEP-2023 DEFINITION Gallus gallus protocadherin gamma subfamily C, 5 (PCDHGC5), mRNA. ACCESSION NM_001396448 VERSION NM_001396448.1 KEYWORDS RefSeq. SOURCE Gallus gallus (chicken) ORGANISM Gallus gallus Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes; Phasianidae; Phasianinae; Gallus. REFERENCE 1 (bases 1 to 4934) AUTHORS Burge S, Kelly E, Lonsdale D, Mutowo-Muellenet P, McAnulla C, Mitchell A, Sangrador-Vegas A, Yong SY, Mulder N and Hunter S. TITLE Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation JOURNAL Database (Oxford) 2012, bar068 (2012) PUBMED 22301074 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 4934) AUTHORS Han MH, Lin C, Meng S and Wang X. TITLE Proteomics analysis reveals overlapping functions of clustered protocadherins JOURNAL Mol Cell Proteomics 9 (1), 71-83 (2010) PUBMED 19843561 REMARK GeneRIF: RNA interference knockdown of both PCDH-alphas and PCDH-gamma showed that PCDHs have redundant functions in regulating neuronal survival in the spinal cord. REFERENCE 3 (bases 1 to 4934) AUTHORS Cronin KD and Capehart AA. TITLE Gamma protocadherin expression in the embryonic chick nervous system JOURNAL Int J Biol Sci 3 (1), 8-11 (2006) PUBMED 17200686 REMARK GeneRIF: Results suggest that pcdh-gamma may function cooperatively with other cell adhesion molecules in neuronal differentiation and establishment of neural networks in several areas of the developing brain, particularly regions involved in visual processing. Publication Status: Online-Only REFERENCE 4 (bases 1 to 4934) AUTHORS Tanabe K, Takeichi M and Nakagawa S. TITLE Identification of a nonchordate-type classic cadherin in vertebrates: chicken Hz-cadherin is expressed in horizontal cells of the neural retina and contains a nonchordate-specific domain complex JOURNAL Dev Dyn 229 (4), 899-906 (2004) PUBMED 15042713 COMMENT VALIDATED REFSEQ: This record has undergone validation or preliminary review. The reference sequence was derived from JAENSK010000256.1. ##Evidence-Data-START## RNAseq introns :: single sample supports all introns SAMEA103992290, SAMEA103992323 [ECO:0000348] ##Evidence-Data-END## PRIMARY REFSEQ_SPAN PRIMARY_IDENTIFIER PRIMARY_SPAN COMP 1-2598 JAENSK010000256.1 89485-92082 2599-2657 JAENSK010000256.1 99814-99872 2658-2746 JAENSK010000256.1 108044-108132 2747-4934 JAENSK010000256.1 113500-115687 FEATURES Location/Qualifiers source 1..4934 /organism="Gallus gallus" /mol_type="mRNA" /db_xref="taxon:9031" /chromosome="13" /map="13" gene 1..4934 /gene="PCDHGC5" /note="protocadherin gamma subfamily C, 5" /db_xref="GeneID:427617" exon 1..2598 /gene="PCDHGC5" /inference="alignment:Splign:2.1.0" misc_feature 91..93 /gene="PCDHGC5" /note="upstream in-frame stop codon" CDS 139..2964 /gene="PCDHGC5" /codon_start=1 /product="protocadherin gamma-C5" /protein_id="NP_001383377.1" /db_xref="GeneID:427617" /translation="
MRADMESVSLQRPAWKWQVLSLFLLCGWGWVSGQIRYSVLEESEVGTLVGNVAQDLGLKVEQLVGRRLRLGSEESRQHFAVRLDSGVLVVSERLDRERLCGAAASCVLSVQVVAENPLQLFRLEVEILDLNDNSPSFPTTHRSLRIAESAAVATCFPLESAQDPDVGTNAVGSYWLNPNSHFSLDVKQLQDGKLFPELVLERALDREERPELQLVLTAVDGGSPARSGTAQITVQVLDINDNAPAFDRATYKVQILENTPVGALLLQLNASDPDEGPNGETQYSFGVHTSEAVRRLFALDPNSGEVRVSGELDFEESPFYEIHVRARDRGVPEMEGHCVLQVEVEDANDNPPEVLLTSLLNPVPEDTPPETVVGLFNVRDRDSGANGDVSLEISPNVPFAVKSLQNHFSLVTRQSLDRETTSQYVVQLTAQDSGSPVLTTSLTLLLNVSDVNDNSPRFLQPSYDAFLPENSPPGSLLCTVSASDPDDGDNSRLVYSIEGHVQGAPASSYVHINPNNGNLYAQRTFDFELLQVLPVSVVVRDSGSPSLHANVTVYIFVLDQNDHPPTILHPAGDDDVPTLERVPLSAPPGYLVTKVTAVDADAGYNAWLSYRLLPESTEPSLFHVSQYTGEVRTARVLRDTDVAVQQLLILVADNGDPPLSTTVTISVALEEEALEESYKPRDFLAGTKEKPDLTLYLIIALAAISTVALATVTLLAAWCLRRRGRAATSPRCCWAAESPSRDFFNHSSPKLQLCSDGTLKYMEVTLRPTDAQSQCYSTCFSPDSDRSDFTFLRPCPPPGTLPREPGAFLSAAGTLRDAGQQAQPNPDWRFSQTQRPGTSGSQNGEEGGAWPNNQFDTEMLQAMILASANEAADVNATLGGGTGTMGLSARYGPQFTLQHVPDYRQNVYIPGSTATLSNAAGKRDAKPSGGNKKKSGKKEKK"
misc_feature 238..486 /gene="PCDHGC5" /note="Cadherin-like; Region: Cadherin_2; pfam08266" /db_xref="CDD:400525" misc_feature 565..864 /gene="PCDHGC5" /note="Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304" /db_xref="CDD:206637" misc_feature order(580..585,751..753,757..759,850..852,856..861) /gene="PCDHGC5" /note="Ca2+ binding site [ion binding]; other site" /db_xref="CDD:206637" misc_feature 886..1188 /gene="PCDHGC5" /note="Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304" /db_xref="CDD:206637" misc_feature order(907..912,1075..1077,1081..1083,1174..1176, 1180..1185) /gene="PCDHGC5" /note="Ca2+ binding site [ion binding]; other site" /db_xref="CDD:206637" misc_feature 1225..1500 /gene="PCDHGC5" /note="Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304" /db_xref="CDD:206637" misc_feature order(1231..1236,1387..1389,1393..1395,1486..1488, 1492..1497) /gene="PCDHGC5" /note="Ca2+ binding site [ion binding]; other site" /db_xref="CDD:206637" misc_feature 1522..1827 /gene="PCDHGC5" /note="Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304" /db_xref="CDD:206637" misc_feature order(1543..1548,1714..1716,1720..1722,1813..1815, 1819..1824) /gene="PCDHGC5" /note="Ca2+ binding site [ion binding]; other site" /db_xref="CDD:206637" misc_feature 1879..2139 /gene="PCDHGC5" /note="Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304" /db_xref="CDD:206637" misc_feature 2212..2517 /gene="PCDHGC5" /note="Cadherin cytoplasmic C-terminal; Region: Cadherin_C_2; pfam16492" /db_xref="CDD:435374" misc_feature 2605..>2889 /gene="PCDHGC5" /note="Cadherin C-terminal cytoplasmic tail, catenin-binding region; Region: Cadherin_tail; pfam15974" /db_xref="CDD:435046" exon 2599..2657 /gene="PCDHGC5" /inference="alignment:Splign:2.1.0" exon 2658..2746 /gene="PCDHGC5" /inference="alignment:Splign:2.1.0" exon 2747..4934 /gene="PCDHGC5" /inference="alignment:Splign:2.1.0" ORIGIN
cccctccgctcggatgctggcagccgagctgcagcctcctacagccccggagctgcttcccgagctggggaacagagagccggggatttttagcggctccgcaaggccggctgtgtcccgggtccggtcctgggccagatgcgtgcggacatggagagcgtcagcctccagcgacccgcctggaaatggcaagtactgagtttgtttttgctctgcggctggggctgggtctctgggcagatccgctactcggtgctcgaggagtcggaggtggggaccttggtggggaacgtggcccaggacctgggcttgaaggtggagcagctggtgggccgcaggctgcgcctgggctcagaggagagtcggcagcacttcgccgtgcgcctggacagcggtgtcctggtggtgagcgagcggctggaccgggagcgcctgtgcggagccgccgccagctgcgtgctgtcagtgcaggtggtggcggagaaccctctgcagctcttccgcctcgaagtggagatcctggatctgaatgacaactcccccagcttccccaccacccaccgcagtctgcgcatcgctgagtctgccgccgtggccacgtgcttccccttggagagcgcgcaggaccccgatgtggggaccaacgccgtgggctcctactggctgaaccccaactcccacttctccttggacgtcaagcagctgcaggatggcaaactcttcccggagctggtgctggagcgcgccttggaccgggaagagcggccagaactgcagctggtgctgacagccgtggatgggggcagcccggcccgctcgggcacagcgcagataacggtgcaggtgctggacatcaatgacaatgctccggcctttgaccgtgccacgtacaaggtgcaaatcctggaaaacacacctgtgggagctctgctcctccagctcaatgcgtcagatcctgatgagggccccaatggggagacgcagtactcctttggggtgcacacctccgaggccgtccggcgactctttgcgctggatcccaacagtggtgaggtgcgggtgagcggggagctggactttgaggaatcacccttctatgagatccacgtgcgggcccgtgacaggggtgtgcccgagatggaggggcactgtgtgctgcaggtggaggtggaagatgccaatgacaaccccccagaggttctgctcacctccctgctgaacccagtgcccgaagacaccccaccagagactgtcgtgggactcttcaacgtgcgggaccgagactcgggggccaacggggatgtgagcttggaaatctcccccaatgtgccgttcgctgtaaagtccttgcagaaccacttctcactggtcacacggcagagcttggatcgagagaccacctcgcagtacgtggtgcagctgactgcccaggacagtgggtcccctgttctcaccacgagcctcacactgctcctcaatgtatctgatgtgaacgacaactcaccgcgcttcctgcagccctcctatgatgctttcctcccagagaacagccctccgggctccctgctctgcactgtctctgcttcagatcctgatgatggagacaattcccgtcttgtttactccatagagggccacgtgcagggtgctcctgcttcttcctacgtccacatcaaccccaacaacggcaacctctatgctcagcgcacctttgacttcgagctgctgcaggttctaccggtctcagtggttgtgcgggactcagggtctccatcgctccacgccaatgtcactgtctatatttttgtgctggaccagaacgaccacccccccaccatcctgcaccctgctggtgacgatgatgtccccaccctggagagggtcccgctgtctgccccaccgggctacctggtgaccaaggtgacagcagtggatgcagacgccgggtacaatgcctggctgtcctaccgcctgctgcccgagtccaccgagccctccttgttccacgtgtcacagtacacaggggaggtgcggacggcacgtgtcctgcgggacaccgatgtggcggtgcagcagctcctcattttggtggcagacaacggcgacccaccactctccaccaccgtcaccatcagcgtggccttggaagaggaagccttggaggagagctacaagccccgggatttcctggctggtaccaaggagaagccagacctgaccctctacctgatcattgcgctggcagccatcagcacggtggcacttgctaccgtcacccttcttgctgcctggtgcctgcggcgccgaggccgtgccgccacttctccccgctgctgctgggctgccgaatcaccatcccgggacttcttcaatcattccagccccaagctgcagctctgctccgacggcacccttaagtacatggaggtcaccctgcggcccaccgacgcccagtcccagtgctacagcacctgcttctctcccgactccgaccgcagcgacttcaccttcctgcggccctgtccgccccccggcacccttcctagggaacctggggctttcctctccgccgccggtaccctgcgggacgccggccagcaagctcagcctaacccggactggcgcttctctcagacccagagacctggaacaagcggttcccagaatggagaggaaggtggagcctggcccaacaaccagtttgacacagagatgcttcaagccatgatcctggcctcggcaaatgaagccgctgatgtcaacgcaacactgggtgggggcacaggcaccatggggctgagcgcccgctacggcccccagttcaccctgcagcacgtccccgactaccggcagaacgtctacatcccgggcagcaccgccacactgagtaatgctgccggcaaacgcgacgccaaaccctcgggtggcaacaagaagaagtctggcaagaaggagaagaagtagaaaggagacgtcagagcgggtgggcagcgcgtgccagcactccccaacaccacaggaggacgaatgtggatttgtttttcttttcatttcttggcgatgcaaaagttaggaagcgctgcgaatgtattgtcatcgtcagagctaggagcaggctgcctgctgttaggtctcatgatgaaaagcaatctggaaagctaaagctaacacaaacaagtgccctgtgaatacagctaacgttttatacgacccctcgggtgttaggatacatgaggtcgaaaggcttcggccatatccttggcttcgatttgctcccagatggtccgagagaggcacgaggctctcgctcagcttcgtccagtgtaaataattgtaacacccatctgttaatttatagagctctgatcattttttttttgttgttgttgttatttggaaagaaaaaggaatttcccagcataaagccccacgttccacgttttctgctcttttaacttcgtgaaactcaccctgggttattggtagcggtggatttgtgggtagggagtgcttcagttcctgttcagctgttatccgaaaaaaaagaaaagaaaaaaaaataagaagtgttcgtattgcatgagtcaaagggaacaatgcagggctgcatcctaaacagttattgttctgttttgttttgttttgttttttttcctgaagtacaaccagccatggcctgagagctcctggtgtctgagcggggcttcggcgcggccctggggggctctgagcagacacatctcatccctgcgctgcagtaaatatttatatgtacagtcaatgttcttttggaattaaagctccggggctgggaggggctgctctgcacctcgccatgaccccacgtgtgcgtcacctgcgtcacggctgcactttggaacacacatccccgcaccccccagccccgaggatgtcctcgcatggccacgcagcatggggtgaaggcgctttgtatttggggagtgggggggttgttgggtaccgagtaagtgacagtgggtttagtggcacctggggagcagatttgggtcagggacttatgggctgggggtccctgcaatggtgtgagcccagggatcagctgggataaaacatgggggggtgatgctggctttggggtttccacctcccagagggaacgggaggacgaggagttggatttctccatgctgtgccccttccaagcaggctcagcccggaggagggtcctggtggcctcggtggcactgctggggataccccaagcaccccgtatcacagcatctgtgccccccccaggaaggcagagaggaaatctggcacccaaagtgggtgcgggtggggagagggtggtcccccctcgacccccccccaggggccactcaatttcacataggattttttgctcttttttaatcactaacacttaactcaccccctacacacacactcccccctcccccctccccagcacacacagacacactccggggggcagcagcccctccgcacaccatgcccaccccaccccaaccccacagctgctccacagccccatgtagctaccacccccctcccctagcaatgccgtaggtgaatcgtagtctttgtatttctttttaacctgcaatctgaggtagcgtagcgagtgtcgtgtatttagtggcgtgttatttttatctcagtaactaacttgtggaacagcagtattctcactttctctgtatcttctctccatgtggtctgtgctccgagtgtacatgagatgaaacacgtttgccctctccatgtgtctaatattgaattatacttatatattatatatatgcttatatccttcttatacccatatagaccgacgtcgatgtgttacacgcaagttttatactctaatatttatattgcttttttttttttctttgggaaaaaaaataataaaaatggtttcttctgaa
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Creative Commons Attribution 4.0 International License (CC BY 4.0).
If you use GGRNA in your work, please cite:
Naito Y, Bono H. (2012)
GGRNA: an ultrafast, transcript-oriented search engine for genes and transcripts.
Nucleic Acids Res., 40, W592-W596.
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